In Dèsser City, around one hundred years ago, a Pokémon named Hoopa Unbound appears boasting how strong it is. It summons Kyogre and Groudon from its interdimensional rings, battling them back and impressing the townspeople, and asking if they were surprised. But when it appears again, summoning Reshiram, Zekrom, and Regigigas, the battle between all the Legendary Pokémon begins to destroy the town. The townspeople cry out to stop, but Hoopa Unbound is too determined to show off. Suddenly, a man appears, an Arceus necklace around his neck, holding an item called the Prison Bottle. Hoopa Unbound is sucked into the bottle, saving the town and halting its rampage.

Nine-year-old Milo (Seth Green, voice-over by Seth Dusky) is just beginning summer vacation, and his father (Tom Everett Scott) is leaving for a business trip. While Milo is wanting his summer to be a fun one, his mother (Joan Cusack) assigns him chores and tasks like taking out the trash. At dinnertime, Milo is given broccoli. His mother has a "no broccoli, no TV" rule which Milo cleverly evades. When Milo feeds his broccoli to his cat, his mom grounds him and sends him to bed early. After a heated argument with his mother, Milo wishes that he never had a mom. Later that night, his wish comes true when his mother is abducted by Martians who plan to steal her "momness" to rear their own young.

In 2079, there is a colony on the Moon called Little America. A retired smuggler called Pluto Nash (Eddie Murphy), who just left prison, buys a nightclub, in an attempt to fulfil a long-time wish of his. Additionally, this prevents the murder by ingestion of battery acid of the club's previous owner, Anthony Frankowski (Jay Mohr), a Polish polka dancer, by mobsters Gino (Burt Young) and Larry (Lillo Brancato) whom Anthony owed money to. Pluto rebuilds the club and establishes it as "Club Pluto." In the next seven years, Club Pluto becomes a very popular Little America nightclub. Its staff consists of Pluto himself, a Hispanic assistant, and an android named Bruno (Randy Quaid), an inferior 63 plus model.

In 1668 Jamaica, Morgan Adams hunts down her uncle and fellow pirate Dawg Brown, who has captured her father, Black Harry. Black Harry has one of three pieces of a map to a huge stash of gold on the remote Cutthroat Island. Dawg has another piece, having stolen it from the corpse of a third brother, Richard, while a fourth brother, Mordechai, has the last piece. Harry refuses to give Dawg his piece and escapes with Morgan's help, but not before being mortally wounded. A dying Harry reveals to his daughter the location of the map piece: on his scalp.

Set in the 1920s, the story follows Joe Coughlin, the prodigal son of a Boston police captain. After moving to Ybor City, Coughlin becomes a bootlegger and a rum-runner and, later, a notorious gangster.

The film begins in March 1836 in the Mexican State of Coahuila y Tejas town of San Antonio de Bexar (now Downtown San Antonio in the U.S. state of Texas), site of the Alamo, where bodies of Texan defenders and Mexican attackers are strewn over the Alamo. The film then flashes back to a year earlier. Sam Houston (Dennis Quaid) attends a party where he tries to persuade people to migrate to Texas. He meets with David Crockett (Billy Bob Thornton), recently defeated for reelection to Congress. Houston explains to Crockett that as an immigrant to Texas, Crockett will receive 640 acres (2.6 km) [a square mile] of his own choosing. Crockett, with a grin, pointedly asks Houston whether this new republic is going to need a president.

Porter Stoddard is so prosperous an architect, he has New York homes on Park Avenue and in the Hamptons, as well as a vacation lodge out west in Sun Valley. He has been married for 25 years to the equally successful Ellie, an interior designer, but has been having an affair with Alex, a beautiful young cellist.

Eric and Ramzy are working as window washers at the Montparnasse skyscraper in Paris. Thinking that he has a date set up with beautiful executive Marie-Joelle (who in reality hates his guts), Ramzy stays at work late while Eric hangs around with him. As a result, the pair witness a gang of terrorists seize the tower and take its late-night occupants (including Marie- Joelle) hostage. Knowing that only they can save the day, Eric and Ramzy swing into action.